PXD034820

PXD034820 is an original dataset announced via ProteomeXchange.

Title	Non-canonical splicing junctions between exons and transposable elements represent a source of immunogenic recurrent neo-antigens in cancer patients
Description	ost characterized tumor antigens are ‘genomic’, i.e. encoded by canonical, non-canonical or somatically mutated genomic sequences. We investigate here the presentation and immunogenicity of tumor antigens derived from non-canonical mRNA splicing events between coding exons and transposable elements (TEs). Comparing non-small cell lung cancer (NSCLC), an immunogenic tumor type, and diverse non-tumor tissues, we identify several thousand splicing junctions between exons and diverse TE classes. A subset of these junctions is both tumor-specific and shared across patients. HLA-I peptidomic identifies peptides encoded by tumor-specific junctions in primary NSCLC samples and lung tumor cell lines. Recurrent junction-encoded peptides are immunogenic in vitro and CD8+ T cells specific for junction-encoded epitopes are present in tumors and tumor-draining lymph nodes from NSCLC patients. We conclude that non-canonical splicing junctions between exons and TEs represent a source of recurrent, immunogenic tumor-specific antigens in NSCLC cancer patients.
HostingRepository	PRIDE
AnnounceDate	2023-11-14
AnnouncementXML	Submission_2023-11-14_07:24:36.185.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Yago Arribas
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	acetylated residue; monohydroxylated residue
Instrument	Q Exactive HF

Revision	Datetime	Status	ChangeLog Entry
0	2022-06-22 02:03:16	ID requested
1	2023-02-27 06:46:14	announced
⏵ 2	2023-11-14 07:24:53	announced	2023-11-14: Updated project metadata.

Merlotti A, Sadacca B, Arribas YA, Ngoma M, Burbage M, Goudot C, Houy A, Roca, ñ, í, n-Arj, ó A, Lalanne A, Seguin-Givelet A, Lefevre M, Heurtebise-Chr, é, tien S, Baudon B, Oliveira G, Loew D, Carrascal M, Wu CJ, Lantz O, Stern MH, Girard N, Waterfall JJ, Amigorena S, Noncanonical splicing junctions between exons and transposable elements represent a source of immunogenic recurrent neo-antigens in patients with lung cancer. Sci Immunol, 8(80):eabm6359(2023) [pubmed]

submitter keyword: transposable element, human, non-canonical splicing, neoantigen,immunopeptidomics

Sebastian Amigorena
contact affiliation	Institut Curie, Université Paris Sciences et Lettres, INSERM U932, 75005 Paris, France.
contact email	sebastian.amigorena@curie.fr
lab head
Yago Arribas
contact affiliation	Institut Curie
contact email	yago.arribas-de-sandoval@curie.fr
dataset submitter

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PRIDE project URI

• PRIDE
  1. PXD034820
     1. Label: PRIDE project
     2. Name: Non-canonical splicing junctions between exons and transposable elements represent a source of immunogenic recurrent neo-antigens in cancer patients